<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP28911

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMELAYVCDWEKRQKNAHCPSIPVVCSWSCRNLVAFTTDLKSDDNEKDVSHMIHIIDTEHPWDVFSINSGHTEVISCLEWDQSGSRLLSADGDGQIKCWSMTDHLVNSWESILSSSLDRDPIIALSWLHNGVKLALHVEMSGSTNFGEKFSRVKFSPSLTLFGGKPMEGWLAVTVSGLVSVSLLKPGGSLLTASESLCRLRGRVALADIAFTGGGNIVVAATDGSSSSPVQFYKVVVSVVSEKCRIDTELLPSLFLRCTTDPMRRDKYPAVTHLKFLTRENSEQVLLCASNQTGSIVECWSLRKEGLPVNNIFQHRSPVVGEKQPTILKWRILTTTGDLERVSAVALPKLPIAISNTDLKVAPDTKFCPGLGLALAFHDGSIQIHHRLSLHFMGIYYSSSSSGPRPGDEATLKRQRTSGPFLHFKALQFSWTSLALVGIDNYGKLHMLRVSPSMCQVLDMNTTLRHLLFLLEYCMVTGYDWWDVLLHVLPNMVHNLVEKLHEEYMRQNQALQQVLATRIVAVKASLCKLSAATAARACDFHAKLLLMAISSTLKSLLRPHVLNTPDKSPGDRLSEICAKNTDTDIDKVMINLKTEEFVLDGPPLQSLQQLIQWVGDFVLYLLANLPNQGSMVRPGFGFMRDGASLGMLREMLVMIRIWGLLKPGCLPTFTAMSDSQDSLQLLFRLLTKLWLCSREDGPTQEPDEGLIDECCLLPSQLLVPSMDWLPVNDGVIVKLQGKNPLKLQFGKASSLPGAAGGAPLEALTRSPGSQKMDNLRCVFLGVCPTEESKACTRCGCVTMLRSPNKTNAMKQWEQRWIKNCLCGGLWRRIPAALS
Length833
PositionTail
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.07
Grand average of hydropathy-0.011
Instability index46.88
Isoelectric point8.03
Molecular weight92200.00
Publications
PubMed=17554307

Function

Annotated function Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
GO - Biological Process
positive regulation of transcription, DNA-templated	GO:0045893	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28911
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.62|      30|      44|      57|      86|       1
---------------------------------------------------------------------------
   57-   86 (56.49/31.29)	TEH...PWDVFSINSGHTEVISCLEWDQSGSRL
  101-  133 (48.13/25.69)	TDHlvnSWESILSSSLDRDPIIALSWLHNGVKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.13|      15|      43|     596|     610|       2
---------------------------------------------------------------------------
  596-  610 (26.33/15.39)	FVLDGPPLQSLQQLI
  637-  651 (24.80/14.03)	FMRDGASLGMLREML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.97|      16|      43|     292|     310|       3
---------------------------------------------------------------------------
  293-  310 (28.26/20.34)	GSIVECW.........SLrkEGLPVNN
  704-  728 (27.71/ 9.83)	GLIDECCllpsqllvpSM..DWLPVND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.56|      29|     134|     517|     570|       6
---------------------------------------------------------------------------
  330-  359 (43.52/15.81)	RILTTTGDLERVSAVALPK........LPIAISNTdLK
  517-  553 (39.04/59.26)	RIVAVKASLCKLSAATAARacdfhaklLLMAISST.LK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.51|      24|      34|     368|     391|       7
---------------------------------------------------------------------------
  368-  391 (42.97/30.44)	PGLGLALAFHDGSIQIHHRLSLHF
  405-  428 (42.54/30.06)	PGDEATLKRQRTSGPFLHFKALQF
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP28911 with Med16 domain of Kingdom Metazoa
Unable to open file!